Locus 11090

Sequence ID dm3.chr3R
Location 18,648,516 – 18,648,576
Length 60
Max. P 0.842100
window15232 window15233

overview

Window 2

Location 18,648,516 – 18,648,576
Length 60
Sequences 5
Columns 60
Reading direction forward
Mean pairwise identity 94.67
Shannon entropy 0.09253
G+C content 0.53333
Mean single sequence MFE -20.28
Consensus MFE -17.86
Energy contribution -18.06
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.88
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.56
SVM RNA-class probability 0.744093
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18648516 60 + 27905053
UGGCUUUGGUCCUUGGAUGAAACCAGGACGAGAAAGCAAGCCACGAUUCUGGAGCACUGA
..(((((.(((((.((......)))))))...)))))..((..((....))..))..... ( -15.20, z-score =  -0.44, R)
>droSim1.chr3R 18460781 60 + 27517382
UGGCUUUGGUCCUUGGAUGAAACCAGGACCAGAAAGCAAGCCACGUUGCUGGAGCACUGA
(((((((((((((.((......)))))))))......))))))((.(((....))).)). ( -22.00, z-score =  -2.15, R)
>droSec1.super_0 19009291 60 + 21120651
UGGCUUUGGUCCUUGGAUGAAACCAGGACCAGAAAGCAAGCCACGAUGCUGGAGCACUGA
(((((((((((((.((......)))))))))......))))))((.(((....))).)). ( -22.00, z-score =  -2.65, R)
>droYak2.chr3R 19501519 60 + 28832112
UGGCUUUGGUCCUUGGAUGAAGCCAGGACCAGAGAGCAAGCCACGAUUCUGGUGCACUGA
...((((((((((.((......)))))))))))).((..((((......))))))..... ( -22.90, z-score =  -2.05, R)
>droEre2.scaffold_4820 1046574 60 - 10470090
UGGCUUUGGUCCUUGGAUGAAACCAGGACCAGAGAGCAAGCCACGAUUCUGCAGCACUGA
...((((((((((.((......)))))))))))).(((...........)))........ ( -19.30, z-score =  -1.48, R)
>consensus
UGGCUUUGGUCCUUGGAUGAAACCAGGACCAGAAAGCAAGCCACGAUUCUGGAGCACUGA
(((((((((((((.((......)))))))))......))))))................. (-17.86 = -18.06 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 18,648,516 – 18,648,576
Length 60
Sequences 5
Columns 60
Reading direction reverse
Mean pairwise identity 94.67
Shannon entropy 0.09253
G+C content 0.53333
Mean single sequence MFE -19.34
Consensus MFE -17.72
Energy contribution -17.92
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.92
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.88
SVM RNA-class probability 0.842100
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 18648516 60 - 27905053
UCAGUGCUCCAGAAUCGUGGCUUGCUUUCUCGUCCUGGUUUCAUCCAAGGACCAAAGCCA
.....((..(......)..))..(((((...(((((((......)).))))).))))).. ( -14.70, z-score =  -0.81, R)
>droSim1.chr3R 18460781 60 - 27517382
UCAGUGCUCCAGCAACGUGGCUUGCUUUCUGGUCCUGGUUUCAUCCAAGGACCAAAGCCA
....(((....)))...((((((......(((((((((......)).))))))))))))) ( -21.30, z-score =  -2.28, R)
>droSec1.super_0 19009291 60 - 21120651
UCAGUGCUCCAGCAUCGUGGCUUGCUUUCUGGUCCUGGUUUCAUCCAAGGACCAAAGCCA
...((((....))))..((((((......(((((((((......)).))))))))))))) ( -22.10, z-score =  -2.77, R)
>droYak2.chr3R 19501519 60 - 28832112
UCAGUGCACCAGAAUCGUGGCUUGCUCUCUGGUCCUGGCUUCAUCCAAGGACCAAAGCCA
.................((((((......(((((((((......)).))))))))))))) ( -18.20, z-score =  -0.95, R)
>droEre2.scaffold_4820 1046574 60 + 10470090
UCAGUGCUGCAGAAUCGUGGCUUGCUCUCUGGUCCUGGUUUCAUCCAAGGACCAAAGCCA
.....((..(......)..))..(((...(((((((((......)).))))))).))).. ( -20.40, z-score =  -1.68, R)
>consensus
UCAGUGCUCCAGAAUCGUGGCUUGCUUUCUGGUCCUGGUUUCAUCCAAGGACCAAAGCCA
.................((((((......(((((((((......)).))))))))))))) (-17.72 = -17.92 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:36:09 2011